Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3D

Orthogroup ID

OG0004034

Physical Location & Seq

Genomic Coordinates Reverse (-)

14418011 .. 14434501

Gene Structure 16491 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3DG166100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 642 bp

ATGCCGGAGGAGGCAGCTCAGACCTATGACGGTGCCGCCAAGTCTCTCCGCGGCAACAAGGCCAAGACCAACTTCCTAACGCCGTTGACCAGAGGATATCTTTCCCTCAACCTTAACATCTCCTCTGCCCAGTGGGCCTCCCACTCCAGCCGTCTAGTTGATGCTGACATCAAGGCAAATAAGTTGCAGAGAAATACAAGTGCCTCTCTGATACCCTACCTGACTGTTCCGTATGTTGATAGGTTCCTATCTTTGAAGGCTCTCAATCCGAAAATGCTTCAGTTACTTGGTGTTTCTTCAATGCTGCTGGTTGCCTCGAAGTATGAGGAGATCACACCTCCACATGCTGAAGAGTTGTGTTACATAACAGATAAACATGAGGTTTGCAGGAGATCCAATAGAGTTGCTGAAGAGAGCGCAAAAGCTTTCCGAAACACCATATGGGGAGTGGTTGAGTCAGCTAAACTGAGAAATCATTGTTACCGTGGAAGCTGTTGCATGGAAAATCTCTCGACAGATTGCAGCATACAGCTAATTGGTGAAGCAGATGCTCTGTTGTATTTGAGATTATGGATGTCATGTACCCATAAGCAGTCATTTGGTGAAGGCCAAAGCATTCTCAGAGCCAAAAATAAAAACTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044464

KEGG Pathways

Metabolic & Signaling

ko04110 ko04152 ko04218 ko04914 ko05161 ko05165 ko05169 ko05203 map04110 map04152 map04218 map04914 map05161 map05165 map05169 map05203

Pfam Domains

Protein Families

Cyclin_C Cyclin_N

Protein Analysis

213

Amino Acids

23.83

Weight (kDa)

9.06

Isoelectric Point (pI)

53.49

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Cyclin_N	PF00134	72 - 129	5.2e-15	Cyclin, N-terminal domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Align Labels (Cladogram)

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Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0004034)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G12980 AT1G28360 AT1G28370 AT1G28370 AT5G44210
fragaria_vesca	FvH4_3g08790 FvH4_7g26410
malus_domestica	MD05G1311600.v1.1 MD10G1290900.v1.1
prunus_persica	Prupe.4G051200_v2.0.a1
rosa_chinensis	RchiOBHm_Chr5g0008971
rosa_laevigata	RLG00000031621
rosa_multiflora	Rmu_sc0001875.1_g000010 Rmu_sc0004677.1_g000023 Rmu_ssc0000183.1_g000016
rosa_roxburghii	Rroxscaffold_1G00067050 Rroxscaffold_1G00067680
rosa_rugosa	Rorug02G0224700
rosa_samantha	Rh2AG229600 Rh2CG100300 Rh2CG233700 Rh2DG237300 Rh3BG166700 Rh3DG166100 Rh4BG243800 Rh5AG069400 Rh5BG066200 Rh5CG077400 Rh5DG065400 Rh7AG201600
rosa_wichuraiana	Rw1G005600 Rw5G006480 Rw7G023460

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	32
AccII	CGCG	1 cut(s)	51
AciI	CCGC	3 cut(s)	36, 49, 51
AclWI	GGATC	1 cut(s)	387
AcuI	CTGAAG	3 cut(s)	263, 369, 429
AfaI	GTAC	1 cut(s)	583
AgsI	TTSAA	2 cut(s)	256, 300
AjuI	GAANNNNNNNTTGG	2 cut(s)	56, 88
AluBI	AGCT	5 cut(s)	17, 425, 461, 492, 532
AluI	AGCT	5 cut(s)	17, 425, 461, 492, 532
Alw26I	GTCTC	1 cut(s)	48
AlwI	GGATC	1 cut(s)	387
AoxI	GGCC	3 cut(s)	60, 135, 607
ApeKI	GCWGC	3 cut(s)	14, 304, 522
AspLEI	GCGC	1 cut(s)	419
AspS9I	GGNCC	1 cut(s)	135
AsuHPI	GGTGA	2 cut(s)	551, 614
BanI	GGYRCC	1 cut(s)	32
BbvI	GCAGC	3 cut(s)	26, 291, 534
BceAI	ACGGC	2 cut(s)	67, 135
BcoDI	GTCTC	1 cut(s)	48
BfaI	CTAG	1 cut(s)	155
BglI	GCCNNNNNGGC	1 cut(s)	134
BisI	GCNGC	5 cut(s)	15, 36, 52, 305, 523
BlsI	GCNGC	5 cut(s)	16, 37, 53, 306, 524
BmgT120I	GGNCC	1 cut(s)	135
BmiI	GGNNCC	2 cut(s)	34, 245
BmrI	ACTGGG	1 cut(s)	124
BmsI	GCATC	2 cut(s)	151, 538
BmuI	ACTGGG	1 cut(s)	124
BpmI	CTGGAG	1 cut(s)	130
BsaJI	CCNNGG	2 cut(s)	49, 484
Bse1I	ACTGG	1 cut(s)	130
BseDI	CCNNGG	2 cut(s)	49, 484
BseGI	GGATG	1 cut(s)	579
BseMII	CTCAG	3 cut(s)	32, 458, 634
BseNI	ACTGG	1 cut(s)	130
BseRI	GAGGAG	3 cut(s)	23, 112, 341
BseXI	GCAGC	3 cut(s)	26, 291, 534
Bsh1236I	CGCG	1 cut(s)	51
BshFI	GGCC	3 cut(s)	62, 137, 609
BshNI	GGYRCC	1 cut(s)	32
BsiSI	CCGG	1 cut(s)	5
BsmAI	GTCTC	1 cut(s)	48
BsmI	GAATGC	1 cut(s)	615
BsnI	GGCC	3 cut(s)	62, 137, 609
Bsp143I	GATC	2 cut(s)	330, 392
BspACI	CCGC	3 cut(s)	36, 49, 51
BspANI	GGCC	3 cut(s)	62, 137, 609
BspCNI	CTCAG	3 cut(s)	31, 459, 633
BspFNI	CGCG	1 cut(s)	51
BspLI	GGNNCC	2 cut(s)	34, 245
BspPI	GGATC	1 cut(s)	387
BspT107I	GGYRCC	1 cut(s)	32
BsrI	ACTGG	1 cut(s)	130
BssECI	CCNNGG	2 cut(s)	49, 484
BssMI	GATC	2 cut(s)	330, 392
Bst4CI	ACNGT	3 cut(s)	32, 226, 485
Bst6I	CTCTTC	2 cut(s)	345, 405
BstDEI	CTNAG	3 cut(s)	18, 467, 620
BstDSI	CCRYGG	2 cut(s)	49, 484
BstF5I	GGATG	1 cut(s)	579
BstFNI	CGCG	1 cut(s)	51
BstHHI	GCGC	1 cut(s)	419
BstKTI	GATC	2 cut(s)	333, 395
BstMAI	GTCTC	1 cut(s)	48
BstMBI	GATC	2 cut(s)	330, 392
BstMWI	GCNNNNNNNGC	1 cut(s)	134
BstNSI	RCATGY	1 cut(s)	347
BstUI	CGCG	1 cut(s)	51
BstV1I	GCAGC	3 cut(s)	26, 291, 534
BstX2I	RGATCY	1 cut(s)	392
BstYI	RGATCY	1 cut(s)	392
BsuRI	GGCC	3 cut(s)	62, 137, 609
BtgI	CCRYGG	2 cut(s)	49, 484
BtsCI	GGATG	1 cut(s)	579
BtsIMutI	CAGTG	1 cut(s)	137
CfoI	GCGC	1 cut(s)	419
Cfr13I	GGNCC	1 cut(s)	135
Cfr42I	CCGCGG	1 cut(s)	52
Csp6I	GTAC	1 cut(s)	582
CviAII	CATG	4 cut(s)	344, 377, 499, 579
CviQI	GTAC	1 cut(s)	582
DdeI	CTNAG	3 cut(s)	18, 467, 620
DpnI	GATC	2 cut(s)	332, 394
DpnII	GATC	2 cut(s)	330, 392
Eam1104I	CTCTTC	2 cut(s)	345, 405
EarI	CTCTTC	2 cut(s)	345, 405
Eco32I	GATATC	1 cut(s)	98
Eco57I	CTGAAG	3 cut(s)	263, 369, 429
EcoRV	GATATC	1 cut(s)	98
FaeI	CATG	4 cut(s)	347, 380, 502, 582
FalI	AAGNNNNNCTT	2 cut(s)	56, 88
FatI	CATG	4 cut(s)	343, 376, 498, 578
FauNDI	CATATG	1 cut(s)	440
Fnu4HI	GCNGC	5 cut(s)	15, 36, 52, 305, 523
FokI	GGATG	1 cut(s)	586
Fsp4HI	GCNGC	5 cut(s)	15, 36, 52, 305, 523
FspBI	CTAG	1 cut(s)	155
GlaI	GCGC	1 cut(s)	418
GluI	GCNGC	5 cut(s)	15, 36, 52, 305, 523
GsuI	CTGGAG	1 cut(s)	130
HaeIII	GGCC	3 cut(s)	62, 137, 609
HapII	CCGG	1 cut(s)	5
HhaI	GCGC	1 cut(s)	419
Hin1II	CATG	4 cut(s)	347, 380, 502, 582
Hin6I	GCGC	1 cut(s)	417
HinP1I	GCGC	1 cut(s)	417
HincII	GTYRAC	1 cut(s)	87
HindII	GTYRAC	1 cut(s)	87
HindIII	AAGCTT	1 cut(s)	423
HinfI	GANTC	1 cut(s)	455
HpaII	CCGG	1 cut(s)	5
HphI	GGTGA	2 cut(s)	551, 614
Hpy166II	GTNNAC	1 cut(s)	87
Hpy188I	TCNGA	5 cut(s)	21, 210, 270, 431, 623
Hpy188III	TCNNGA	1 cut(s)	511
Hpy8I	GTNNAC	1 cut(s)	87
HpyAV	CCTTC	2 cut(s)	250, 599
HpyCH4III	ACNGT	3 cut(s)	32, 226, 485
HpyCH4V	TGCA	4 cut(s)	187, 387, 498, 522
HpyF10VI	GCNNNNNNNGC	1 cut(s)	134
HpyF3I	CTNAG	3 cut(s)	18, 467, 620
Hsp92II	CATG	4 cut(s)	347, 380, 502, 582
HspAI	GCGC	1 cut(s)	417
KspI	CCGCGG	1 cut(s)	52
Kzo9I	GATC	2 cut(s)	330, 392
LpnPI	CCDG	7 cut(s)	18, 103, 143, 160, 233, 293, 373
Lsp1109I	GCAGC	3 cut(s)	26, 291, 534
LweI	GCATC	2 cut(s)	151, 538
MaeI	CTAG	1 cut(s)	155
MaeIII	GTNAC	3 cut(s)	282, 359, 479
MalI	GATC	2 cut(s)	332, 394
MboI	GATC	2 cut(s)	330, 392
MboII	GAAGA	3 cut(s)	288, 362, 422
MflI	RGATCY	1 cut(s)	392
MluCI	AATT	1 cut(s)	534
MlyI	GAGTC	1 cut(s)	464
MseI	TTAA	1 cut(s)	114
MspA1I	CMGCKG	1 cut(s)	51
MspI	CCGG	1 cut(s)	5
Mva1269I	GAATGC	1 cut(s)	615
MvnI	CGCG	1 cut(s)	51
MwoI	GCNNNNNNNGC	1 cut(s)	134
NdeI	CATATG	1 cut(s)	440
NdeII	GATC	2 cut(s)	330, 392
NlaIII	CATG	4 cut(s)	347, 380, 502, 582
NlaIV	GGNNCC	2 cut(s)	34, 245
NspI	RCATGY	1 cut(s)	347
PctI	GAATGC	1 cut(s)	615
PkrI	GCNGC	5 cut(s)	16, 37, 53, 306, 524
PleI	GAGTC	1 cut(s)	463
PpsI	GAGTC	1 cut(s)	463
PspN4I	GGNNCC	2 cut(s)	34, 245
PspPI	GGNCC	1 cut(s)	135
PsuI	RGATCY	1 cut(s)	392
RsaI	GTAC	1 cut(s)	583
RsaNI	GTAC	1 cut(s)	582
SacII	CCGCGG	1 cut(s)	52
SaqAI	TTAA	1 cut(s)	114
SatI	GCNGC	5 cut(s)	15, 36, 52, 305, 523
Sau3AI	GATC	2 cut(s)	330, 392
Sau96I	GGNCC	1 cut(s)	135
SchI	GAGTC	1 cut(s)	464
SfaNI	GCATC	2 cut(s)	151, 538
Sfr303I	CCGCGG	1 cut(s)	52
SgrBI	CCGCGG	1 cut(s)	52
Sse9I	AATT	1 cut(s)	534
SsiI	CCGC	3 cut(s)	36, 49, 51
SspMI	CTAG	1 cut(s)	155
TaaI	ACNGT	3 cut(s)	32, 226, 485
TaqI	TCGA	2 cut(s)	317, 512
TasI	AATT	1 cut(s)	534
TauI	GCSGC	2 cut(s)	38, 54
Tru1I	TTAA	1 cut(s)	114
Tru9I	TTAA	1 cut(s)	114
TscAI	CASTG	1 cut(s)	137
TseI	GCWGC	3 cut(s)	14, 304, 522
TspGWI	ACGGA	1 cut(s)	219
TspRI	CASTG	1 cut(s)	137
XceI	RCATGY	1 cut(s)	347
XcmI	CCANNNNNNNNNTGG	1 cut(s)	445
XspI	CTAG	1 cut(s)	155

Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.